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Conserved domains on  [gi|1620919180|gb|THD79941|]
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MAG: methylated-DNA--[protein]-cysteine S-methyltransferase [Phenylobacterium sp.]

Protein Classification

methylated-DNA--[protein]-cysteine S-methyltransferase( domain architecture ID 11417447)

methylated-DNA--[protein]-cysteine S-methyltransferase is involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA; it repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme

CATH:  3.30.160.70|1.10.10.10
EC:  2.1.1.63
Gene Ontology:  GO:0003908|GO:0003677|GO:0046872|GO:0006281|GO:0032259
PubMed:  17500045|17485252
SCOP:  4000565|4000678

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 18-180 1.34e-64

DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, recombination and repair];


:

Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 195.86  E-value: 1.34e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  18 RMATPIGEALIVTDEHGrLRAFNWRDYEARMrawIARHYPKAALSEGRLPDPVRSAFERYFTGDAGALDgLEWRASGTPF 97
Cdd:COG0350     6 IFDTPLGPLLIAATDRG-LCALSFGDDREEA---LLARFPAALREDPPLLAEAARQLDAYFAGERKDFD-LPLDLRGTPF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  98 QLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEGAS 177
Cdd:COG0350    81 QRRVWEALRKIPYGETVTYGELARAIGRPKAARAVGSACGANPIPIIIPCHRVIGADGSLGGYAGGLERKRALLELEGAL 160


                  ...
gi 1620919180 178 FKE 180
Cdd:COG0350   161 AAA 163
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 18-180 1.34e-64

DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, recombination and repair];


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 195.86  E-value: 1.34e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  18 RMATPIGEALIVTDEHGrLRAFNWRDYEARMrawIARHYPKAALSEGRLPDPVRSAFERYFTGDAGALDgLEWRASGTPF 97
Cdd:COG0350     6 IFDTPLGPLLIAATDRG-LCALSFGDDREEA---LLARFPAALREDPPLLAEAARQLDAYFAGERKDFD-LPLDLRGTPF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  98 QLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEGAS 177
Cdd:COG0350    81 QRRVWEALRKIPYGETVTYGELARAIGRPKAARAVGSACGANPIPIIIPCHRVIGADGSLGGYAGGLERKRALLELEGAL 160


                  ...
gi 1620919180 178 FKE 180
Cdd:COG0350   161 AAA 163
PRK10286 PRK10286
methylated-DNA--[protein]-cysteine S-methyltransferase;
17-175 1.95e-54

methylated-DNA--[protein]-cysteine S-methyltransferase;


Pssm-ID: 182355 [Multi-domain]  Cd Length: 171  Bit Score: 170.43  E-value: 1.95e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  17 ERMATPIGEALIVTDEHGRLRAFNWRDYEARMRAWIARHYPK------AALSEGRLPDPVRSaferYFTGDAGALDGLEW 90
Cdd:PRK10286    7 EKIATPLGPLWVICDEQFRLRAVEWEEYSERMVQLLDIHYRKegyeriSATNPGGLSDKLRD----YFAGNLSIIDTLPT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  91 RASGTPFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWL 170
Cdd:PRK10286   83 ATGGTPFQREVWQTLRTIPCGQVMHYGQLAEQLGRPGAARAVGAANGSNPISIVVPCHRVIGRNGTMTGYAGGVQRKEWL 162


                  ....*
gi 1620919180 171 LAHEG 175
Cdd:PRK10286  163 LRHEG 167
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 96-176 8.03e-46

6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal DNA-binding domain of 6-O-methylguanine-DNA methyltransferases.


Pssm-ID: 460036  Cd Length: 81  Bit Score: 145.20  E-value: 8.03e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  96 PFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEG 175
Cdd:pfam01035   1 PFQRRVWEALRQIPYGKTTTYGEIAKLLGRPKAARAVGNALGANPIPIIVPCHRVVGSDGSLGGYAGGLERKRALLELEG 80


                  .
gi 1620919180 176 A 176
Cdd:pfam01035  81 V 81
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 95-174 1.31e-44

O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273157  Cd Length: 80  Bit Score: 142.45  E-value: 1.31e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  95 TPFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHE 174
Cdd:TIGR00589   1 TPFQQKVWKALRTIPYGETKSYGQLAKAIGNPKAARAVGGANGRNPLAILVPCHRVVGKNGTLTGYGGGLERKEFLLEHE 80
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 97-175 1.07e-39

The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of the C-terminal domain, suggesting an important structural role for the N-terminal domain in orienting the C-terminal domain for proper catalysis. Some ATase C-terminal domain homologs are either single-domain proteins that lack an N-terminal domain, or have a tryptophan substituted in place of the acceptor cysteine (i.e. the motif PCHR is replaced by PWHR). ATase null mutant mice are viable, fertile, and have a normal lifespan.


Pssm-ID: 119438 [Multi-domain]  Cd Length: 79  Bit Score: 129.91  E-value: 1.07e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1620919180  97 FQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEG 175
Cdd:cd06445     1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTPKAARAVGSALARNPIPILIPCHRVVRSDGGLGGYRGGLERKRELLELEG 79
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 18-180 1.34e-64

DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, recombination and repair];


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 195.86  E-value: 1.34e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  18 RMATPIGEALIVTDEHGrLRAFNWRDYEARMrawIARHYPKAALSEGRLPDPVRSAFERYFTGDAGALDgLEWRASGTPF 97
Cdd:COG0350     6 IFDTPLGPLLIAATDRG-LCALSFGDDREEA---LLARFPAALREDPPLLAEAARQLDAYFAGERKDFD-LPLDLRGTPF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  98 QLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEGAS 177
Cdd:COG0350    81 QRRVWEALRKIPYGETVTYGELARAIGRPKAARAVGSACGANPIPIIIPCHRVIGADGSLGGYAGGLERKRALLELEGAL 160


                  ...
gi 1620919180 178 FKE 180
Cdd:COG0350   161 AAA 163
PRK10286 PRK10286
methylated-DNA--[protein]-cysteine S-methyltransferase;
17-175 1.95e-54

methylated-DNA--[protein]-cysteine S-methyltransferase;


Pssm-ID: 182355 [Multi-domain]  Cd Length: 171  Bit Score: 170.43  E-value: 1.95e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  17 ERMATPIGEALIVTDEHGRLRAFNWRDYEARMRAWIARHYPK------AALSEGRLPDPVRSaferYFTGDAGALDGLEW 90
Cdd:PRK10286    7 EKIATPLGPLWVICDEQFRLRAVEWEEYSERMVQLLDIHYRKegyeriSATNPGGLSDKLRD----YFAGNLSIIDTLPT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  91 RASGTPFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWL 170
Cdd:PRK10286   83 ATGGTPFQREVWQTLRTIPCGQVMHYGQLAEQLGRPGAARAVGAANGSNPISIVVPCHRVIGRNGTMTGYAGGVQRKEWL 162


                  ....*
gi 1620919180 171 LAHEG 175
Cdd:PRK10286  163 LRHEG 167
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 96-176 8.03e-46

6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal DNA-binding domain of 6-O-methylguanine-DNA methyltransferases.


Pssm-ID: 460036  Cd Length: 81  Bit Score: 145.20  E-value: 8.03e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  96 PFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEG 175
Cdd:pfam01035   1 PFQRRVWEALRQIPYGKTTTYGEIAKLLGRPKAARAVGNALGANPIPIIVPCHRVVGSDGSLGGYAGGLERKRALLELEG 80


                  .
gi 1620919180 176 A 176
Cdd:pfam01035  81 V 81
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 95-174 1.31e-44

O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273157  Cd Length: 80  Bit Score: 142.45  E-value: 1.31e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  95 TPFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHE 174
Cdd:TIGR00589   1 TPFQQKVWKALRTIPYGETKSYGQLAKAIGNPKAARAVGGANGRNPLAILVPCHRVVGKNGTLTGYGGGLERKEFLLEHE 80
PRK00901 PRK00901
methylated-DNA--protein-cysteine methyltransferase; Provisional
 75-175 8.39e-41

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 234860 [Multi-domain]  Cd Length: 155  Bit Score: 135.18  E-value: 8.39e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  75 ERYFTGDAGALDgLEWRASGTPFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGAN 154
Cdd:PRK00901   53 EEYFEGKRKKFD-LPLAPQGTEFQKKVWKALQEIPYGETRSYKEIAVNIGNPKACRAVGLANNKNPIPIFIPCHRVIGAN 131

                          90       100
                  ....*....|....*....|.
gi 1620919180 155 GSLTGYGGGLPRKRWLLAHEG 175
Cdd:PRK00901  132 GKLVGYAGGLDIKEKLLKLEK 152
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 97-175 1.07e-39

The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of the C-terminal domain, suggesting an important structural role for the N-terminal domain in orienting the C-terminal domain for proper catalysis. Some ATase C-terminal domain homologs are either single-domain proteins that lack an N-terminal domain, or have a tryptophan substituted in place of the acceptor cysteine (i.e. the motif PCHR is replaced by PWHR). ATase null mutant mice are viable, fertile, and have a normal lifespan.


Pssm-ID: 119438 [Multi-domain]  Cd Length: 79  Bit Score: 129.91  E-value: 1.07e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1620919180  97 FQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEG 175
Cdd:cd06445     1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTPKAARAVGSALARNPIPILIPCHRVVRSDGGLGGYRGGLERKRELLELEG 79
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 24-183 1.67e-27

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 105.91  E-value: 1.67e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  24 GEALIVTDEHGRLRAFNWRDYEARMRAWIARHyPKAALSEGRLPDPVRSAFERYFTGDAGALDGLEWRASGTPFQLKVWE 103
Cdd:COG2169   200 GLLLVAASARGVCAILLGDDPEALLRDLQDRF-PAAELIGGDAAFEQLVAEVVGFVEGPLLGLDLPLDLRGTAFQQRVWQ 278

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180 104 TLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAHEGASFKEQMA 183
Cdd:COG2169   279 ALRAIPAGETASYAEIAARIGAPKAVRAVAAACAANQLAVAIPCHRVVRADGALSGYRWGVERKRALLEREAAAAAAAAA 358
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
94-174 7.47e-27

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 104.10  E-value: 7.47e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  94 GTPFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLTGYGGGLPRKRWLLAH 173
Cdd:PRK15435  268 GTAFQQQVWQALRTIPCGETVSYQQLANAIGKPKAVRAVASACAANKLAIVIPCHRVVRGDGALSGYRWGVSRKAQLLRR 347


                  .
gi 1620919180 174 E 174
Cdd:PRK15435  348 E 348
Atl1 COG3695
Alkylated DNA nucleotide flippase Atl1, participates in nucleotide excision repair, Ada-like ...
 95-181 3.14e-15

Alkylated DNA nucleotide flippase Atl1, participates in nucleotide excision repair, Ada-like DNA-binding domain [Transcription];


Pssm-ID: 442910  Cd Length: 104  Bit Score: 67.90  E-value: 3.14e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  95 TPFQLKVWETLCTIPAGETLSYAGLATRIGRPSAVRAVGLANGANPISVLVPCHRVIGANGSLT-GYGGGLPRKRWLLAH 173
Cdd:COG3695     4 EEFYERVYEVVAQIPPGRVATYGDIAALAGLPRGARQVGRALRALPEGSDLPWHRVVNADGRLSpGHAGGAEEQRELLEA 83


                  ....*...
gi 1620919180 174 EGASFKEQ 181
Cdd:COG3695    84 EGVPVVDD 91
PRK03887 PRK03887
methylated-DNA--protein-cysteine methyltransferase; Provisional
 95-175 9.63e-11

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 167628 [Multi-domain]  Cd Length: 175  Bit Score: 57.82  E-value: 9.63e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1620919180  95 TPFQLKVWETLC-TIPAGETLSYAGLATRIGrpSAVRAVGLANGANPISVLVPCHRVIGANGsLTGYGGGLPRKRWLLAH 173
Cdd:PRK03887   91 TPFERKVYEWLTkNVKRGEVITYGELAKALN--TSPRAVGGAMKRNPYPIIVPCHRVVGRKN-PGLYTPKPEYKKFLLEV 167


                  ..
gi 1620919180 174 EG 175
Cdd:PRK03887  168 EG 169
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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